3GBM

Crystal Structure of Fab CR6261 in Complex with a H5N1 influenza virus hemagglutinin.

Structural Biology Knowledgebase: 3GBM SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Free: 0.261
  • R-Value Work: 0.203

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3GBM

Classification: viral protein / immune system

Total Structure Weight: 213735.89

Macromolecule Entities
Molecule Chains Length Organism Details
Hemagglutinin A, C 334 Influenza a virus Fragment: Receptor Binding Domain, HA1
Gene Name(s): HA
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Hemagglutinin B, D 177 Influenza a virus Fragment: Membrane Fusion Domain, HA2
Gene Name(s): HA
antibody (Fab) H, I 226 Homo sapiens Fragment: Fab Heavy Chain
antibody (Fab) L, M 221 Homo sapiens Fragment: Fab Lambda Light Chain

Small Molecules
Ligands 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
NAG
Query on NAG

A, B, C, D N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
BMA
Query on BMA

A, C BETA-D-MANNOSE
C6 H12 O6
WQZGKKKJIJFFOK-RWOPYEJCSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GOL
Query on GOL

B GLYCEROL
2, (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
EDO
Query on EDO

A, C 1,2-ETHANEDIOL
ETHYLENE GLYCOL (Synonym)
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Free: 0.261
  • R-Value Work: 0.203
  • Space Group: P 21 3
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 202.76 α = 90.00
b = 202.76 β = 90.00
c = 202.76 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2009-02-20
  • Released Date: 2009-03-10
  • Deposition author(s): Ekiert, D.C., Elsliger, M.A., Wilson, I.A.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4
  • 2011-07-13
    Type: Flag residual B-value | Details: Tagged residual B temperature factor